SecReT6
I. Summary
SecReT6 ID207 insolico
StrainPseudomonas mendocina ymp
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_009439
Location2554174..2576995
Comment
FunctionN/A
T6SS TypeType i; subtype i3
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111111111
ComponentTssGTssJTssKTssM
Number1111
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III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1Pmen_23132549688..2552744 [-], 3057146307338protein kinase  PpkA
2Pmen_23142552760..2553491 [-], 732146307339protein phosphatase 2C domain-containing protein  PppA
3Pmen_23152553488..2554177 [-], 690146307340hypothetical protein  TagF
4Pmen_23162554174..2557689 [-], 3516146307341ImcF domain-containing protein  TssM
5Pmen_23172557686..2559047 [-], 1362146307342hypothetical protein  TssL
6Pmen_23182559054..2560388 [-], 1335146307343hypothetical protein  TssK
7Pmen_23192560409..2560876 [-], 468146307344hypothetical protein  TssJ
8Pmen_23202560951..2562393 [-], 1443146307345FHA domain-containing protein  Fha
9Pmen_23212562769..2563791 [+], 1023146307346ImpA domain-containing protein  TssA
10Pmen_23222563855..2564370 [+], 516146307347hypothetical protein  TssB
11Pmen_23232564386..2565882 [+], 1497146307348hypothetical protein  TssC
12Pmen_23242565959..2566447 [+], 489146307349hypothetical protein  TssD
13Pmen_23252566521..2566952 [+], 432146307350hypothetical protein 
14Pmen_23262566949..2567395 [+], 447146307351hypothetical protein 
15Pmen_23272567442..2568227 [+], 786146307352virulence protein, SciE type  TagJ
16Pmen_23282568230..2568742 [+], 513146307353GPW/gp25 family protein  TssE
17Pmen_23292568739..2570598 [+], 1860146307354hypothetical protein  TssF
18Pmen_23302570613..2571599 [+], 987146307355hypothetical protein  TssG
19Pmen_23312571592..2574294 [+], 2703146307356ATPase  TssH
20Pmen_23322574325..2576550 [+], 2226146307357Rhs element Vgr protein  TssI
21Pmen_23332576561..2576995 [+], 435146307358hypothetical protein 
22Pmen_23342577010..2578122 [+], 1113146307359hypothetical protein 
23Pmen_23352578122..2579159 [+], 10381463073603-oxoacyl-(acyl carrier protein) synthase 
24Pmen_23362579159..2580244 [+], 1086146307361hypothetical protein 
25Pmen_23372580257..2581153 [+], 897146307362hypothetical protein 
 
flank Genes in the 5-kb flanking regions if available, or non-core components encoded by the T6SS gene cluster if any. In the 'Note' column,if available, '(e)' denotes effector while '(i)' for immunity protein

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Proteins        Genes

V. Investigation of the genomic context of the T6SS gene cluster.
1. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the mobile genetic elements database, ACLAME.
 






2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.
 






3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.
 







Homology Effector list
PA0085 , PA0095, PSPTO_5435

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog
1Pmen_23242565959..2566447 [+], 489146307349hypothetical protein PA0085
2Pmen_23322574325..2576550 [+], 2226146307357Rhs element Vgr protein PA0095
3Pmen_44874919837..4920355 [+], 519146309501hypothetical protein PSPTO_5435

Download FASTA format files
Proteins        Genes
N/A
(1) Sarris PF et al. (2011). Pseudomonas entomophila and Pseudomonas mendocina: potential models for studying the bacterial type VI secretion system. Infect Genet Evol. 11(6):1352-60. [PudMed:21600307] in_silico
(2) Barret M et al. (2011). Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology. 157(Pt 6):1726-39. [PudMed:21474537] in_silico
 
in_silico This literature contains bioinformatics investigation